Hello Martin,
Yep, this is fully resolved for me. Thanks for following up, and for all
the hard work you and the rest of the team do.

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Aaron
On Fri, Aug 21, 2015 at 9:55 AM, Martin Čech <mar...@bx.psu.edu> wrote:
> Hi Aaron,
>
> I am just following up with a note that this has been fully resolved.
> Please let us know if you find any more problems.
>
> Thank you for using Galaxy.
>
> Martin
>
> On Wed, Aug 12, 2015 at 7:21 PM Aaron Petkau <aaron.pet...@gmail.com>
> wrote:
>
>> Heh, always something that's discovered after the fact. Happens to me
>> all the time. Thanks for getting back to me quickly. Looks like the fix
>> you did works. Only other tool is sam_to_bam
>> https://toolshed.g2.bx.psu.edu/repository?repository_id=01221a8c57f0fc1a&changeset_revision=c73bf16b45df.
>> Hopefully not too much trouble.
>>
>> Thanks again Martin,
>>
>> Aaron
>> On Wed, Aug 12, 2015 at 5:10 PM, Martin Čech <mar...@bx.psu.edu> wrote:
>>
>>> Hi Aaron,
>>>
>>> this is most probably connected with a bug that we discovered today in
>>> the 'reset metadata for all my repositories' feature. Unfortunately we
>>> discovered it by running it on Main Tool Shed. We have an alternate (time
>>> consuming) way of fixing individual repos (like I just did for the
>>> samtools_mpileup) so if you give me a list of tools you need to use
>>> with old revisions I will make sure they are in a good shape.
>>>
>>> This only affects devteam repos.
>>> We are working on a fix, please bare with us.
>>>
>>> Thank you for using Galaxy!
>>>
>>> Martin
>>>
>>> On Wed, Aug 12, 2015 at 5:44 PM Aaron Petkau <aaron.pet...@gmail.com>
>>> wrote:
>>>
>>>> Hey everyone,
>>>>
>>>> So I rely a lot on specific versions of tools in the toolshed, and am
>>>> often testing out the install process to make sure everything's working.
>>>> Today I noticed that my install process was failing, and it looks like it's
>>>> due to not being able to install previous versions of tools through the
>>>> API. It seems to default to installing the latest version of a tool.
>>>>
>>>> For example, for the tool samtools_mpileup
>>>> <https://toolshed.g2.bx.psu.edu/repository?repository_id=01d08a1b766b864e&changeset_revision=aa0ef6f0ee89>,
>>>> if I run the code:
>>>>
>>>> gi.toolShed.install_repository_revision("http://toolshed.g2.bx.psu.edu/
>>>> ",'samtools_mpileup','devteam','973fea5b4bdf',install_tool_dependencies=True,install_repository_dependencies=True)
>>>>
>>>> in bioblend (to install revision 973fea5b4bdf) I instead get the latest
>>>> (aa0ef6f0ee89) revision installed. I can see the previous revision still
>>>> exists
>>>> https://toolshed.g2.bx.psu.edu/repository?repository_id=01d08a1b766b864e&changeset_revision=973fea5b4bdf
>>>> .
>>>>
>>>> I'm wondering if something has changed here? I remember being able to
>>>> install old versions of tools through the API before, but maybe I'm getting
>>>> mixed up?
>>>>
>>>> Thanks,
>>>>
>>>> Aaron
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>>>